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Pattern searching/alignment with RNA primary and secondary structures: an effective descriptor for tRNA.

D Gautheret·F Major·R Cedergren
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Abstract

A convenient pattern-matching program using primary and higher-order structural features has been developed based on a 'backtracking' algorithm. A second implementation of the algorithm uses descriptors of structural features (including primary sequences) to align a list of homologous or highly similar sequences. An application of the pattern matcher to the search for tRNA and group I intron structural motifs in sequence data banks is presented. The design of a highly discriminate tRNA motif, common to all cellular tRNAs and not found in a control sequence bank, was accomplished using the pattern matcher in conjunction with the alignment program.

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AlgorithmsAmino Acid SequenceMicrocomputersMolecular Sequence DataNucleic Acid ConformationRNARNA, TransferSoftwareJournal ArticleResearch Support, Non-U.S. Gov't

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D Gautheret, F Major, R Cedergren. 1990. Pattern searching/alignment with RNA primary and secondary structures: an effective descriptor for tRNA.. https://doi.org/10.1093/bioinformatics%2F6.4.325

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